8ET1: GSDMB pore without transmembrane beta-barrel

CryoEM structure of GSDMB pore without transmembrane beta-barrel. Determined by electron microscopy at 4.48 Å resolution. Released 29 Mar 2023.

Method: Electron microscopy
Resolution: 4.48 Å
Organism: Homo sapiens
Chains: 24
Atoms: 35,976
Mol. weight: 1124.36 kDa
Released: 29 Mar 2023

Explore 8ET1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8ET1 contains 96 α-helices and 384 β-strands across 24 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chains A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W and X: 4 helices, 16 β-strands

Element	Residues	Length	Sheet
α-helix	5-16	12
β-strand	23-24	2	1
α-helix	41-42	2
β-strand	43-44	2	2
β-strand	50-51	2	2
β-strand	84-90	7	3
β-strand	114-120	7	3
β-strand	121	1	4
α-helix	128-135	8
α-helix	145-151	7
β-strand	156	1	5
β-strand	163	1	4
β-strand	164	1	6
β-strand	169	1	7
β-strand	171-172	2	3
β-strand	198	1	7
β-strand	203	1	6
β-strand	206-207	2	1
β-strand	211-213	3	5
β-strand	220-222	3	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Isoform 1 of Gasdermin-B	A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	protein	411	Homo sapiens	Q8TAX9 (AlphaFold model)

Sequence of entity 1 (A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X), FASTA

>8ET1_1 Isoform 1 of Gasdermin-B (chains A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X)
MFSVFEEITRIVVKEMDAGGDMIAVRSLVDADRFRCFHLVGEKRTFFGCRHYTTGLTLMD
ILDTDGDKWLDELDSGLQGQKAEFQILDNVDSTGELIVRLPKEITISGSFQGFHHQKIKI
SENRISQQYLATLENRKLKRELPFSFRSINTRENLYLVTETLETVKEETLKSDRQYKFWS
QISQGHLSYKHKGQREVTIPPNRVLSYRVKQLVFPNKETMSAGLDIHFRGKTKSFPEGKS
LGSEDSRNMKEKLEDMESVLKDLTEEKRKDVLNSLAKCLGKEDIRQDLEQRVSEVLISGE
LHMEDPDKPLLSSLFNAAGVLVEARAKAILDFLDALLELSEEQQFVAEALEKGTLPLLKD
QVKSVMEQNWDELASSPPDMDYDPEARILCALYVVVSILLELAEGPTSVSS

Primary citation

Structural basis for GSDMB pore formation and its targeting by IpaH7.8. Wang, C., Shivcharan, S., Tian, T. et al. Nature (2023) 616:590-597. DOI 10.1038/s41586-023-05832-z · PubMed

Other PDB entries of the same protein (UniProt Q8TAX9 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5TIB 2.6 Å, Gasdermin-B C-terminal domain containing the polymorphism residues Arg299:Ser306 fused…
9K1S 2.69 Å, Crystal structure of human granzyme A in complex with GSDMB-C domain
7WJQ 2.7 Å, Crystal structure of GSDMB in complex with Ipah7.8
8GTJ 2.7 Å, Crystal structure of IpaH7.8-LRR and GSDMB isoform-4 complex
5TJ2 2.8 Å, Gasdermin-B C-terminal domain containing the polymorphism residues Gly299:Ser306 fused…
8GTK 3.1 Å, Crystal structure of IpaH7.8-LRR and GSDMB isoform-1 complex
8GTN 3.17 Å, Cryo-EM structure of the gasdermin B pore
9XSG 3.4 Å, CryoEM structure of hGZMA-hGSDMB
5TJ4 3.5 Å, Gasdermin-B C-terminal domain containing the polymorphism residues Gly299:Pro306 fused…
21AM 3.59 Å, CryoEM structure of hGZMA-hGSDMBctd
8EFP 3.8 Å, CryoEM structure of GSDMB in complex with shigella IpaH7.8
8ET2 4.96 Å, CryoEM structure of the GSDMB pore

Browse structure collections

About this viewer

MolViewer shows 8ET1 directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.